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<h3>
Steffen Möller pushed to branch master
at <a href="https://salsa.debian.org/med-team/bcbio">Debian Med / bcbio</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/86669a52ae53c3cf475c4b5d3dba6de8c6740836">86669a52</a></strong>
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<span>by Steffen Möller</span>
<i>at 2019-06-03T22:58:10Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update on pizzly packaging
</pre>
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<h4>1 changed file:</h4>
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<a href="#d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
debian/TODO
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<h4>Changes:</h4>
<li id="d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
<a href="https://salsa.debian.org/med-team/bcbio/commit/86669a52ae53c3cf475c4b5d3dba6de8c6740836#d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba"><strong>debian/TODO</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -4,7 +4,15 @@ package bamtofastq from biobambam2</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">snpEff</span></span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="mosel"> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">snpeff</span><span class="p">.</span><span class="n" style="color: #333;">sourceforge</span><span class="p">.</span><span class="n" style="color: #333;">net</span><span class="p">/</span></span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">salsa</span><span class="p">.</span><span class="n" style="color: #333;">debian</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">/</span><span class="n" style="color: #333;">med</span><span class="p">-</span><span class="n" style="color: #333;">team</span><span class="p">/</span><span class="n" style="color: #333;">snpeff</span><span class="p">/</span><span class="n" style="color: #333;">blob</span><span class="p">/</span><span class="n" style="color: #333;">master</span><span class="p">/</span><span class="n" style="color: #333;">debian</span><span class="p">/</span><span class="n" style="color: #333;">changelog</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="mosel"> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">packaging</span> <span class="n" style="color: #333;">needs</span> <span class="n" style="color: #333;">help</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">its</span> <span class="n" style="color: #333;">dependencies</span><span class="p">.</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="mosel"> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">packaging</span> <span class="n" style="color: #333;">needs</span> <span class="n" style="color: #333;">help</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">its</span> <span class="n" style="color: #333;">dependencies</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="mosel"> <span class="n" style="color: #333;">apfloat</span> <span class="m" style="color: #099;">1.6.3</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">mtommila</span><span class="p">/</span><span class="n" style="color: #333;">apfloat</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="mosel"> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">apfloat</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">/</span><span class="n" style="color: #333;">apfloat_java</span><span class="p">/</span><span class="n" style="color: #333;">maven</span><span class="p">.</span><span class="n" style="color: #333;">html</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="mosel"> <span class="n" style="color: #333;">charts4j</span> <span class="m" style="color: #099;">1.3</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">mvnrepository</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">artifact</span><span class="p">/</span><span class="n" style="color: #333;">com</span><span class="p">.</span><span class="n" style="color: #333;">googlecode</span><span class="p">.</span><span class="n" style="color: #333;">charts4j</span><span class="p">/</span><span class="n" style="color: #333;">charts4j</span><span class="p">/</span><span class="m" style="color: #099;">1.3</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="mosel"> <span class="n" style="color: #333;">com</span><span class="p">.</span><span class="n" style="color: #333;">typesafe</span><span class="p">.</span><span class="n" style="color: #333;">akka</span><span class="p">:</span><span class="n" style="color: #333;">akka</span><span class="p">-</span><span class="n" style="color: #333;">actor</span> <span class="m" style="color: #099;">2.0.1</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="mosel"> <span class="n" style="color: #333;">distlib</span> <span class="m" style="color: #099;">0.9.1</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">sourceforge</span><span class="p">.</span><span class="n" style="color: #333;">net</span><span class="p">/</span><span class="n" style="color: #333;">projects</span><span class="p">/</span><span class="n" style="color: #333;">statdistlib</span><span class="p">/?</span><span class="n" style="color: #333;">source</span><span class="p">=</span><span class="n" style="color: #333;">navbar</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="mosel"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">atropos</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">salsa</span><span class="p">.</span><span class="n" style="color: #333;">debian</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">/</span><span class="n" style="color: #333;">med</span><span class="p">-</span><span class="n" style="color: #333;">team</span><span class="p">/</span><span class="n" style="color: #333;">atropos</span> <span class="p">(</span><span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">new</span> <span class="n" style="color: #333;">queue</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="83" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="91" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -83,12 +91,16 @@ package seqcluster</td>
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="mosel"></span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">pizzly</span></span>
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85
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93
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">pmelsted</span><span class="p">/</span><span class="n" style="color: #333;">pizzly</span></span>
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<td class="diff-line-num old old_line" data-linenumber="86" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
86
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<td class="diff-line-num new_line old" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="mosel"> <span class="n" style="color: #333;"><span class="idiff left">including</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">pizzly_flatten_json</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">py</span></span></span>
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<td class="diff-line-num old old_line" data-linenumber="87" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
87
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="mosel"> <span class="idiff left"> </span><span class="n" style="color: #333;"><span class="idiff">Steffen</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">has</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">a</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">look</span></span></span>
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<td class="diff-line-num new old_line" data-linenumber="88" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="mosel"> <span class="n" style="color: #333;"><span class="idiff left">https</span></span><span class="p"><span class="idiff">://</span></span><span class="n" style="color: #333;"><span class="idiff">salsa</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">debian</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">org</span></span><span class="p"><span class="idiff">/</span></span><span class="n" style="color: #333;"><span class="idiff">med</span></span><span class="p"><span class="idiff">-</span></span><span class="n" style="color: #333;"><span class="idiff">team</span></span><span class="p"><span class="idiff">/</span></span><span class="n" style="color: #333;"><span class="idiff">pizzly</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">fails</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">in</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">pbuilder</span></span><span class="idiff"> </span><span class="p"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">help</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">requested</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<td class="diff-line-num new new_line" data-linenumber="95" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="mosel"> <span class="n" style="color: #333;"><span class="idiff left">still</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">needs</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">to</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">include</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">pizzly_flatten_json</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">py</span></span></span>
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88
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96
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="mosel"></span>
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89
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<td class="diff-line-num new_line" data-linenumber="97" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
97
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">vt</span></span>
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<td class="diff-line-num old_line" data-linenumber="90" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
90
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98
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">atks</span><span class="p">/</span><span class="n" style="color: #333;">vt</span></span>
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<td class="diff-line-num old_line" data-linenumber="91" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
91
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99
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="mosel"></span>
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100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">Rmath</span></span>
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<td class="diff-line-num new new_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">atks</span><span class="p">/</span><span class="n" style="color: #333;">Rmath</span></span>
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<td class="diff-line-num new new_line" data-linenumber="102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="mosel"> <span class="n" style="color: #333;">needed</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">vt</span></span>
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<td class="diff-line-num new new_line" data-linenumber="103" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="mosel"></span>
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92
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<td class="diff-line-num new_line" data-linenumber="104" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
104
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<pre style="margin: 0;"> <span id="LC104" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">fgbio</span></span>
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<td class="diff-line-num old_line" data-linenumber="93" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
93
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<td class="diff-line-num new_line" data-linenumber="105" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
105
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">fulcrumgenomics</span><span class="p">/</span><span class="n" style="color: #333;">fgbio</span></span>
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<td class="diff-line-num old_line" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
94
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<td class="diff-line-num new_line" data-linenumber="106" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
106
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="mosel"> <span class="n" style="color: #333;">Anyone</span> <span class="n" style="color: #333;">much</span> <span class="n" style="color: #333;">into</span> <span class="n" style="color: #333;">scala</span><span class="p">?</span></span>
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